Well... based on the size of your pot and the size of your chiller, it will either fit or not. But iIf there isn't room, I would recommend getting a false bottom that would sir above the probe to protect it and still be able to use the chiller
Or you could replace the thermometer with one that has a shorter probe. I have a 10 gallon kettle with a 2" temp probe. My home made chiller fits around it nicely.